Gene
Entrez ID Entrez Gene ID - the GENE ID in NCBI Gene database.
22992
Gene name Gene Name - the full gene name approved by the HGNC.
Lysine demethylase 2A
Gene symbol Gene Symbol - the official gene symbol approved by the HGNC.
KDM2A
Synonyms (NCBI Gene) Gene synonyms aliases
CXXC8, FBL11, FBL7, FBXL11, JHDM1A, LILINA
Chromosome Chromosome number
11
Chromosome location Chromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.
11q13.2
Summary Summary of gene provided in NCBI Entrez Gene.
This gene encodes a member of the F-box protein family which is characterized by an approximately 40 amino acid motif, the F-box. The F-box proteins constitute one of the four subunits of ubiquitin protein ligase complex called SCFs (SKP1-cullin-F-box), w
miRNA miRNA information provided by mirtarbase database.
miRTarBase ID miRNA Experiments Reference
MIRT022928 hsa-miR-124-3p Proteomics;Microarray 18668037
MIRT031826 hsa-miR-16-5p Proteomics 18668040
MIRT040732 hsa-miR-92b-3p CLASH 23622248
MIRT039165 hsa-miR-769-5p CLASH 23622248
MIRT038392 hsa-miR-296-3p CLASH 23622248
Transcription factors
Transcription factor Regulation Reference
NFKB1 Unknown 20080798
RELA Unknown 20080798
Gene ontology (GO) Gene ontology information of associated ontologies with gene provided by GO database.
GO ID Ontology Definition Evidence Reference
GO:0003677 Function DNA binding IEA
GO:0003712 Function Transcription coregulator activity IBA
GO:0005515 Function Protein binding IPI 15070733, 20080798, 24981860, 27705803, 33961781
GO:0005634 Component Nucleus IEA
GO:0005654 Component Nucleoplasm IDA
Other IDs Other ids provides unique ids of gene in databases such as OMIM, HGNC, ENSEMBLE.
MIM HGNC e!Ensembl
605657 13606 ENSG00000173120
Protein
UniProt ID Q9Y2K7
Protein name Lysine-specific demethylase 2A (EC 1.14.11.27) (CXXC-type zinc finger protein 8) (F-box and leucine-rich repeat protein 11) (F-box protein FBL7) (F-box protein Lilina) (F-box/LRR-repeat protein 11) (JmjC domain-containing histone demethylation protein 1A)
Protein function Histone demethylase that specifically demethylates 'Lys-36' of histone H3, thereby playing a central role in histone code. Preferentially demethylates dimethylated H3 'Lys-36' residue while it has weak or no activity for mono- and tri-methylated
PDB 2YU1 , 2YU2 , 4BBQ , 6BYH , 6C16 , 7UV9
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF17811 JHD 303 360 Jumonji helical domain Domain
PF02008 zf-CXXC 563 609 CXXC zinc finger domain Domain
PF16866 PHD_4 614 676 PHD-finger Domain
PF00646 F-box 889 935 F-box domain Domain
Tissue specificity TISSUE SPECIFICITY: Widely expressed, with highest levels in brain, testis and ovary, followed by lung. {ECO:0000269|PubMed:10231032}.
Sequence
MEPEEERIRYSQRLRGTMRRRYEDDGISDDEIEGKRTFDLEEKLHTNKYNANFVTFMEGK
DFNVEYIQRGGLRDPLIFKNSDGLGIKMPDPDFTVNDVKMCVGSRRMVDVMDVNTQKGIE
MTMAQWTRYYETPEEEREKLYNVISLEFSHTRLENMVQRPSTVDFIDWVDNMWPRHLKES
QTESTNAILEMQYPKVQKYCLMSVRGCYTDFHVDFGGTSVWYHIHQGGKVFWLIPPTAHN
LELYENWLLSGKQGDIFLGDRVSDCQRIELKQGYTFVIPSGWIHAVYTPTDTLVFGGNFL
HSFNIPMQLKIYNIEDRTRVPNKFRYPFYYEMCWYVLERYVYCITNRSHLTKEFQKESLS
MDLELNGLESGNGDEEAVDREPRRLSSRRSVLTSPVANGVNLDYDGLGKTCRSLPSLKKT
LAGDSSSDCSRGSHNGQVWDPQCAPRKDRQVHLTHFELEGLRCLVDKLESLPLHKKCVPT
GIEDEDALIADVKILLEELANSDPKLALTGVPIVQWPKRDKLKFPTRPKVRVPTIPITKP
HTMKPAPRLTPVRPAAASPIVSGARRRRVRCRKCKACVQGECGVCHYCRDMKKFGGPGRM
KQSCVLRQC
LAPRLPHSVTCSLCGEVDQNEETQDFEKKLMECCICNEIVHPGCLQMDGEG
LLNEELPNCWECPKCY
QEDSSEKAQKRKMEESDEEAVQAKVLRPLRSCDEPLTPPPHSPT
SMLQLIHDPVSPRGMVTRSSPGAGPSDHHSASRDERFKRRQLLRLQATERTMVREKENNP
SGKKELSEVEKAKIRGSYLTVTLQRPTKELHGTSIVPKLQAITASSANLRHSPRVLVQHC
PARTPQRGDEEGLGGEEEEEEEEEEEDDSAEEGGAARLNGRGSWAQDGDESWMQREVWMS
VFRYLSRRELCECMRVCKTWYKWCCDKRLWTKIDL
SRCKAIVPQALSGIIKRQPVSLDLS
WTNISKKQLTWLVNRLPGLKDLLLAGCSWSAVSALSTSSCPLLRTLDLRWAVGIKDPQIR
DLLTPPADKPGQDNRSKLRNMTDFRLAGLDITDATLRLIIRHMPLLSRLDLSHCSHLTDQ
SSNLLTAVGSSTRYSLTELNMAGCNKLTDQTLIYLRRIANVTLIDLRGCKQITRKACEHF
ISDLSINSLYCLSDEKLIQKIS
Sequence length 1162
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG   Reactome
  Polycomb repressive complex   HDMs demethylate histones
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Associated diseases Disease associations categorized as Causal (pathogenic variants), Unknown (uncertain genetic evidence), or Text Mining (literature-based associations)
Unknown Includes: (1) ClinVar NON-pathogenic variants (Uncertain, Benign, Conflicting, VUS), (2) GenCC associations, (3) GWAS associations, (4) CBGDA evidence-based associations. NOTE: Diseases with pathogenic evidence are excluded to avoid conflicts.
Disease merge term Disease name Evidence References Source
Alzheimer disease Alzheimer's disease or family history of Alzheimer's disease N/A N/A GWAS
Ovarian cancer Ovarian clear cell cancer Knockdown of Either KDM2A or PAIP1 Suppresses the Growth of OCCC Cells 35723366 CBGDA
Prostate cancer Prostate cancer N/A N/A GWAS
Associations from Text Mining Disease associations identified through Pubtator
Disease Name Relationship Type References
Adenocarcinoma Associate 29619118
Breast Neoplasms Associate 25029110, 26207617, 26416883, 33050392, 40427554
Carcinoma Ductal Associate 25029110
Carcinoma Hepatocellular Associate 34612138
Carcinoma Intraductal Noninfiltrating Stimulate 25029110
Carcinoma Non Small Cell Lung Associate 29619118
Carcinoma Ovarian Epithelial Stimulate 30483796
Carcinoma Renal Cell Associate 34391411, 35813477
Carcinoma Squamous Cell Associate 29619118
Colorectal Neoplasms Associate 33155208